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. 2019 Jul 2;47(W1):W59-W64.
doi: 10.1093/nar/gkz238.

OrganellarGenomeDRAW (OGDRAW) version 1.3.1: expanded toolkit for the graphical visualization of organellar genomes

Stephan Greiner  1 , Pascal Lehwark  2 , Ralph Bock  1
Affiliations

OrganellarGenomeDRAW (OGDRAW) version 1.3.1: expanded toolkit for the graphical visualization of organellar genomes

Stephan Greiner et al. Nucleic Acids Res. .

Abstract

Organellar (plastid and mitochondrial) genomes play an important role in resolving phylogenetic relationships, and next-generation sequencing technologies have led to a burst in their availability. The ongoing massive sequencing efforts require software tools for routine assembly and annotation of organellar genomes as well as their display as physical maps. OrganellarGenomeDRAW (OGDRAW) has become the standard tool to draw graphical maps of plastid and mitochondrial genomes. Here, we present a new version of OGDRAW equipped with a new front end. Besides several new features, OGDRAW now has access to a local copy of the organelle genome database of the NCBI RefSeq project. Together with batch processing of (multi-)GenBank files, this enables the user to easily visualize large sets of organellar genomes spanning entire taxonomic clades. The new OGDRAW server can be accessed at https://chlorobox.mpimp-golm.mpg.de/OGDraw.html.

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Figures

Figure 1.
Figure 1.
OGDRAW GUI in the standard mode. For details, see text.
Figure 2.
Figure 2.
OGDRAW GUI in the transcript mode. For details, see text.
Figure 3.
Figure 3.
OGDRAW v1.3.1 output with default parameters illustrating the chloroplast genome of Oenothera elata (AJ271079.4). Genes inside the circle are transcribed clockwise, genes outside the circle counter clockwise. The circle inside the GC content graph marks the 50% threshold. Note that in contrast to earlier versions of OGDRAW (right box), intron containing genes are now marked by an asterisk (*) and introns are no longer directly drawn into the genes. Please also note that the inverted repeat A (IRA) is now designated as the right one on the map. For details see text.
Figure 4.
Figure 4.
OGDRAW v1.3.1 output with default parameters illustrating the human mitochondrial genome (NC_012920.1). Genes inside the circle are transcribed clockwise, genes outside the circle counter clockwise. The circle inside the GC content graph marks the 50% threshold. Note that the D-loop, spanning start and end of the submitted linear sequence, is now drawn by default.
See this image and copyright information in PMC

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